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WNT3A Wnt family member 3A [ Homo sapiens (human) ]

Gene ID: 89780, updated on 3-May-2025
Official Symbol
WNT3Aprovided by HGNC
Official Full Name
Wnt family member 3Aprovided by HGNC
Primary source
HGNC:HGNC:15983
See related
Ensembl:ENSG00000154342 MIM:606359; AllianceGenome:HGNC:15983
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
The WNT gene family consists of structurally related genes which encode secreted signaling proteins. These proteins have been implicated in oncogenesis and in several developmental processes, including regulation of cell fate and patterning during embryogenesis. This gene is a member of the WNT gene family. It encodes a protein which shows 96% amino acid identity to mouse Wnt3A protein, and 84% to human WNT3 protein, another WNT gene product. This gene is clustered with WNT14 gene, another family member, in chromosome 1q42 region. [provided by RefSeq, Jul 2008]
Expression
Biased expression in placenta (RPKM 9.0), lung (RPKM 1.6) and 1 other tissue See more
Orthologs
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See WNT3A in Genome Data Viewer
Location:
1q42.13
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (228006998..228061271)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (227196039..227250282)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (228194699..228248972)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene septin 14 pseudogene 17 Neighboring gene capicua transcriptional repressor pseudogene 26 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1905 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1906 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2687 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:228223992-228224955 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:228236665-228236871 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:228251567-228252540 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:228262596-228263096 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:228263097-228263597 Neighboring gene long intergenic non-protein coding RNA 2809 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1907 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1908 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1909 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2688 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:228283911-228284880 Neighboring gene ARF GTPase 1 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:228284937-228286136 Neighboring gene microRNA 3620

  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
Products Interactant Other Gene Complex Source Pubs Description

Markers

Clone Names

  • MGC119418, MGC119419, MGC119420

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables co-receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables cytokine activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables frizzled binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables frizzled binding IEA
Inferred from Electronic Annotation
more info
 
enables identical protein binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein domain specific binding IEA
Inferred from Electronic Annotation
more info
 
enables receptor ligand activity IDA
Inferred from Direct Assay
more info
PubMed 
enables receptor ligand activity IEA
Inferred from Electronic Annotation
more info
 
enables signaling receptor binding IEA
Inferred from Electronic Annotation
more info
 
enables signaling receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transcription coactivator activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
acts_upstream_of B cell proliferation IEA
Inferred from Electronic Annotation
more info
 
involved_in COP9 signalosome assembly IEA
Inferred from Electronic Annotation
more info
 
involved_in COP9 signalosome assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within Wnt signaling pathway involved in forebrain neuroblast division IEA
Inferred from Electronic Annotation
more info
 
involved_in animal organ development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within anterior/posterior pattern specification IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within axis elongation involved in somitogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within axon guidance IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within axonogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in calcium ion transmembrane transport via low voltage-gated calcium channel IEA
Inferred from Electronic Annotation
more info
 
involved_in canonical Wnt signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in canonical Wnt signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
involved_in canonical Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
involved_in canonical Wnt signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in canonical Wnt signaling pathway TAS
Traceable Author Statement
more info
PubMed 
involved_in cardiac muscle cell fate commitment IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within cardiac muscle cell fate commitment IEA
Inferred from Electronic Annotation
more info
 
involved_in cell fate commitment IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in cell proliferation in forebrain IEA
Inferred from Electronic Annotation
more info
 
involved_in cell proliferation in forebrain ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in cell proliferation in midbrain IEA
Inferred from Electronic Annotation
more info
 
involved_in cell proliferation in midbrain TAS
Traceable Author Statement
more info
PubMed 
involved_in cellular response to retinoic acid ISS
Inferred from Sequence or Structural Similarity
more info
 
acts_upstream_of_or_within determination of left/right symmetry IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within dorsal/ventral neural tube patterning IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within extracellular matrix organization IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of fat cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in heart development IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within heart looping IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within hemopoiesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within hippocampus development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within in utero embryonic development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within inner ear morphogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within mammary gland development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within mesoderm development IEA
Inferred from Electronic Annotation
more info
 
involved_in midbrain development IEA
Inferred from Electronic Annotation
more info
 
involved_in midbrain dopaminergic neuron differentiation TAS
Traceable Author Statement
more info
PubMed 
involved_in modulation of chemical synaptic transmission IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within myoblast differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of axon extension involved in axon guidance IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of dopaminergic neuron differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of fat cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of neurogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of neurogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of neuron projection development IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of neuron projection development ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in neurogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in neuron differentiation IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in neuron differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in non-canonical Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within osteoblast differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within paraxial mesodermal cell fate commitment IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within platelet activation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within platelet aggregation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within positive regulation of B cell proliferation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within positive regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of DNA-templated transcription ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of canonical Wnt signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of canonical Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of positive regulation of cardiac muscle cell differentiation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of cell population proliferation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within positive regulation of cell-cell adhesion mediated by cadherin IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within positive regulation of collateral sprouting in absence of injury IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within positive regulation of cytokine production IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of dermatome development IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of gene expression IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of hepatocyte proliferation IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of mesodermal cell fate specification IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of neural precursor cell proliferation IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of protein localization to plasma membrane IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of receptor internalization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of skeletal muscle tissue development IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
 
acts_upstream_of_or_within post-anal tail morphogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in presynapse assembly TAS
Traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within protein localization IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within regulation of RNA biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within regulation of axonogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within regulation of cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of gene expression IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within regulation of microtubule cytoskeleton organization IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of postsynapse to nucleus signaling pathway IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of presynapse assembly IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of presynapse assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of synapse organization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of synapse organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in secondary palate development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within skeletal muscle cell differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within somatic stem cell division IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within somitogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within spinal cord association neuron differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in synaptic vesicle recycling TAS
Traceable Author Statement
more info
PubMed 
acts_upstream_of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in Golgi lumen TAS
Traceable Author Statement
more info
 
part_of Wnt-Frizzled-LRP5/6 complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in cell surface IEA
Inferred from Electronic Annotation
more info
 
located_in cell surface ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in early endosome membrane TAS
Traceable Author Statement
more info
 
located_in endocytic vesicle membrane TAS
Traceable Author Statement
more info
 
located_in endoplasmic reticulum lumen TAS
Traceable Author Statement
more info
 
located_in extracellular exosome TAS
Traceable Author Statement
more info
 
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular region TAS
Traceable Author Statement
more info
 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
located_in extracellular space IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular space ISS
Inferred from Sequence or Structural Similarity
more info
 
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in glutamatergic synapse IEA
Inferred from Electronic Annotation
more info
 
is_active_in glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
located_in presynapse IEA
Inferred from Electronic Annotation
more info
 
is_active_in synapse IEA
Inferred from Electronic Annotation
more info
 
Preferred Names
protein Wnt-3a
Names
wingless-type MMTV integration site family, member 3A

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_033131.4NP_149122.1  protein Wnt-3a precursor

    See identical proteins and their annotated locations for NP_149122.1

    Status: REVIEWED

    Source sequence(s)
    AB060284, AK056278, AL136379, CA437424, DA742143
    Consensus CDS
    CCDS1564.1
    UniProtKB/Swiss-Prot
    P56704, Q3SY79, Q3SY80, Q969P2
    Related
    ENSP00000284523.1, ENST00000284523.2
    Conserved Domains (1) summary
    cd19335
    Location:39352
    Wnt_Wnt3_Wnt3a; Wnt domain found in proto-oncogene Wnt-3 and similar proteins

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    228006998..228061271
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    227196039..227250282
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)